{"code":"SASDFG6","status":"Published","type_of_curve":"Single concentration","angular_unit":"1/nm","project":{"title":"Regulation of futile ligation during early steps of BER in M. tuberculosis is carried out by a β-clamp-XthA-LigA tri-component complex","publication":{"title":"Regulation of futile ligation during early steps of BER in M. tuberculosis is carried out by a β-clamp-XthA-LigA tri-component complex","author_list":"Shukla A, Afsar M, Khanam T, Kumar N, Ali F, Kumar S, Jahan F, Ramachandran R","journal":"International Journal of Biological Macromolecules","doi":"10.1016/j.ijbiomac.2022.11.094","pmid":null,"published_date":"2022 Nov"},"status":"released","submitted_date":"2019-05-24","released_date":"2021-09-27"},"pddf_data":"https://www.sasbdb.org/media/p_of_R_files/SASDFG6.out","intensities_data":"https://www.sasbdb.org/media/intensities_files/SASDFG6.dat","intensities_log_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFG6_dat_img.png","intensities_kratky_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFG6_kratky_img.png","pddf_plot":"https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDFG6_pofr_img.png","intensities_guinier_plot":"https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFG6_guinier_img.png","sascif_data":"https://www.sasbdb.org/media/sascif/sascif_files/SASDFG6.sascif","experiment":{"instrument":{"detector":{"type":"Dectris","name":"Pilatus 1M","resolution":172.0},"name":"ESRF","city":"Grenoble","country":"France","beamline_name":"BM29","beam_geometry":"","type_of_source":"X-ray synchrotron","point_source":null,"line_collimation":null,"sample_path_length":null,"line_collimation_slitlength":null,"line_collimation_integrationwidth":null,"xray_energy":null,"beam_profile_ah":null,"beam_profile_al":null},"sample":{"molecule":[{"long_name":"Beta sliding clamp","short_name":null,"sequence":"MDAATTRVGLTDLTFRLLRESFADAVSWVAKNLPARPAVPVLSGVLLTGSDNGLTISGFDYEVSAEAQVGAEIVSPGSVLVSGRLLSDITRALPNKPVDVHVEGNRVALTCGNARFSLPTMPVEDYPTLPTLPEETGLLPAELFAEAISQVAIAAGRDDTLPMLTGIRVEILGETVVLAATDRFRLAVRELKWSASSPDIEAAVLVPAKTLAEAAKAGIGGSDVRLSLGTGPGVGKDGLLGISGNGKRSTTRLLDAEFPKFRQLLPTEHTAVATMDVAELIEAIKLVALVADRGAQVRMEFADGSVRLSAGADDVGRAEEDLVVDYAGEPLTIAFNPTYLTDGLSSLRSERVSFGFTTAGKPALLRPVSGDDRPVAGLNGNGPFPAVSTDYVYLLMPVRLPGHHHHHH","organism":"Mycobacterium 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XthA","short_name":"MtbXthA","sequence":"MRLATWNVNSVKARLPRLLAWLDETKPDVVCLQETKSAADGFPSGDVAELGYTTAAYGEGRWNGVAILSRVGIEDVSKSFPGEPVYQGEAPAGPGVQTQLTEPVLLAPQARAIGATCGGIRVWSLYAPNGRTPESAHYLYKLEWFAALRDALAAELSAGTPLVATGDYNVAPTDDDVWDPSVFVGSTHVTPAERQALAELRDLGLHDIVPTPMKGPHPYTYWDYRAGSFHKDLGMRIDLVYGNGAFAERVRSAYVDREARKGRGPSDHAPVVVDLDHHHHHH","organism":"Mycobacterium tuberculosis","uniprot_code":"A0A0T9L251","uniprot_range_first":1,"uniprot_range_last":289,"oligomerization":"monomer","molecular_type":"protein","uniprot_sequence":null,"mw":30.699,"total_mw":30.699,"number_molecules":1,"complex_state":false,"deuteration":null,"molecule_source":"biological","molecule_description":null},{"long_name":"DNA ligase A","short_name":null,"sequence":"MSSPDADQTAPEVLRQWQALAEEVREHQFRYYVRDAPIISDAEFDELLRRLEALEEQHPELRTPDSPTQLVGGAGFATDFEPVDHLERMLSLDNAFTADELAAWAGRIHAEVGDAAHYLCELKIDGVALSLVYREGRLTRASTRGDGRTGEDVTLNARTIADVPERLTPGDDYPVPEVLEVRGEVFFRLDDFQALNASLVEEGKAPFANPRNSAAGSLRQKDPAVTARRRLRMICHGLGHVEGFRPATLHQAYLALRAWGLPVSEHTTLATDLAGVRERIDYWGEHRHEVDHEIDGVVVKVDEVALQRRLGSTSRAPRWAIAYKYPPEEAQTKLLDIRVNVGRTGRITPFAFMTPVKVAGSTVGQATLHNASEIKRKGVLIGDTVVIRKAGDVIPEVLGPVVELRDGSEREFIMPTTCPECGSPLAPEKEGDADIRCPNARGCPGQLRERVFHVASRNGLDIEVLGYEAGVALLQAKVIADEGELFALTERDLLRTDLFRTKAGELSANGKRLLVNLDKAKAAPLWRVLVALSIRHVGPTAARALATEFGSLDAIAAASTDQLAAVEGVGPTIAAAVTEWFAVDWHREIVDKWRAAGVRMVDERDESVPRTLAGLTIVVTGSLTGFSRDDAKEAIVARGGKAAGSVSKKTNYVVAGDSPGSKYDKAVELGVPILDEDGFRRLLADGPASRTHHHHHH","organism":"Mycobacterium 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mM Tris-HCl, 200 mM NaCl, 2 mM β-mercaptoethanol","concentration_unit":null,"comment":null,"additive":null,"concentration":null,"pka":null,"ph":8.0,"deuteration":null},"purity_method":null,"name":"Probable exodeoxyribonuclease III protein XthA, sliding beta clamp, DNA ligase-A tricomplex","ext_coefficient":null,"contrast":null,"specific_vol":null,"dry_vol":null,"absorbption":null,"deuteration":null,"mixture":null},"contributor":[{"affiliation":[{"short_name":null,"address":"India","full_name":"CSIR - Central Drug Research Institute","webpage":"https://cdri.res.in/"}],"contributor_name":"Ravishankar","contributor_surname":"Ramachandran","orcid":""}],"concentration_method":null,"concentration_unit":null,"date":"2017-05-17","storage_temperature":4.0,"cell_temperature":10.0,"exposure_time":1.0,"number_of_frames":10,"wavelength":0.0992,"sample_detector_distance":2.9,"concentration_min":null,"concentration_max":2.0,"sample_volume":null,"flow_rate":null,"s_min":0.031,"s_max":4.944,"total_exposure_time":null,"seccolumn":null},"fits":[{"models":[{"model_plot":"https://www.sasbdb.org/media/pdb_file/images/SASDFG6_fit1_model1_img.png","software":"DAMMIF","pdb_link":[],"model_title":null,"type_of_model":"dummy","software_version":"DAMAVER","model_data":"https://www.sasbdb.org/media/pdb_file/SASDFG6_fit1_model1.pdb","model_mw":346.167,"bead_radius":5.75,"log":null,"symmetry":null,"comment":null,"user":328}],"fit_unit":"1/A","fit_plot":"https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDFG6_fit1_fixed_fit_img.png","software":"DAMMIF","chi_square_value":1.119,"p_value":0.0,"fit_residual_plot":"SASDFG6_fit1_fitresiduals_img.png","fit_data":"https://www.sasbdb.org/media/fitting_files/SASDFG6_fit1.fir","fit_log":"https://www.sasbdb.org/media/fitting_files/log_files/2.0_r_mgml_complex_420_sub-1.log","software_version":null,"description":""}],"estimated_volume_method":null,"pddf_software":"ATSAS GNOM","pddf_software_version":"5.0","i0_calibration_standard":null,"description":"The presented model shows the spatial alignment of several individually calculated models and does not fit the SAXS data. A corresponding individual model fit (individual model not provided for this entry) is shown. The sample shows signs of severe aggregation.","experiment_description":"Synchrotron SAXS data from solutions of the probable XthA, sliding beta clamp, DNA ligase-A tricomplex in 50 mM Tris-HCl, 200 mM NaCl, 2 mM β-mercaptoethanol, pH 8 were collected on the BM29 beam line at the ESRF storage ring (Grenoble, France) using a Pilatus 1M detector at a sample-detector distance of 2.9 m and at a wavelength of λ = 0.0992 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 2.00 mg/ml was measured at 10°C. 10 successive 1 second frames were collected. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted.","tags":[],"intensity_unit":"arbitrary","experimental_mw":205.0,"experimental_mw_error":null,"guinier_i0_mw":null,"guinier_i0_mw_error":null,"porod_mw":313.0,"porod_mw_error":null,"pddf_i0":62.81,"pddf_i0_error":null,"guinier_i0":60.38,"guinier_i0_error":0.23,"pddf_rg":6.391,"pddf_rg_error":null,"guinier_rg":5.76,"guinier_rg_error":0.069,"pddf_dmax":25.33,"pddf_dmax_error":null,"porod_volume":501.0,"porod_volume_error":null,"estimated_volume":null,"estimated_volume_error":null,"guinier_point_first":24,"guinier_point_last":41,"pddf_point_first":null,"pddf_point_last":null,"i0_calibration_standard_data":null,"intensities_log_log_plot":"SASDFG6_datloglog_img.png","symmetry":null,"last_modified":"2022-11-17T09:57:12.570420+01:00","bragg_peak":[]}